- Transcript BART1_0-u11397.008
- Transcript IDBART1_0-u11397.008
- Gene IDBART1_0-u11397
Barley RTD
Exon Structure of BART1_0-u11397.008
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 405593981 | 405593749 | + |
| chr2H | 2 | 405594558 | 405594075 | + |
| chr2H | 3 | 405594715 | 405594650 | + |
| chr2H | 4 | 405594910 | 405594845 | + |
| chr2H | 5 | 405595321 | 405595025 | + |
| chr2H | 6 | 405595560 | 405595400 | + |
| chr2H | 7 | 405598229 | 405596793 | + |
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
Salmon TPM Values: sixteensamplesmorex
These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 0 | 0 | 0 |
| morex | ETI | 1.49606 | 1.82141 | 2.13287 |
| morex | LEA | 0.372307 | 1.30361 | 0 |
| morex | EPI | 0 | 2.89363 | 0.876368 |
| morex | ROO | 0 | 0.510513 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0.000004363 | 0 |
| morex | INF1 | 0 | 0.30935 | 0 |
| morex | INF2 | 0.282946 | 0 | 0 |
| morex | CAR5 | 0.385925 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.000000141772 | 0.486624 | 0 |
| morex | LOD | 0.0538941 | 0.000269276 | 0.555513 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 3.15503 | 1.42958 | 0.736344 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g05010.1 | +1 | 6e-77 | 258 | 150/239 (63%) | protein|helix-loop-helix DNA-binding domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g58230.1.p | +1 | 1e-138 | 419 | 256/387 (66%) | pacid=32794195 transcript=Bradi1g58230.1 locus=Bradi1g58230 ID=Bradi1g58230.1.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
Click here to see more tracks within GBrowse -->
grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (2744 bp)
>BART1_0-u11397.008 2744 150831_barley_pseudomolecules CAGCGATGTCAACGGATCCTCCCCCTCCATACGAATGCCGCACAACTCTTCTCTCCTCTT CTCTTCTCTCGTCCTTTTATTATTCCCGAGAAAATCGAACCCAGCTAGACAGTCCACAGC TCTGGCACACAGCTTCGCTCTCCGCCGGTTTCTGCTCAAGTGGAGAGGCCCGTCAGCTCG ATCGGTTCCAGGATCATGGACGACGGCGCAACACCGCCGCCCAACCACAAGAGACTGCGG GAGGCGGGCGGCGACCTCGTGGAGCTGCTGTGGCAGAACGGAGCCATCGTAGCGCAGGCG CAGGCGCAGACGCCGCACCGCCGGTGTTCCCAGAGCGGCGCGGCGAGCGGCGTCACCGCG GAGGACGCGACCGCGTGGTTGATCCCGGACGGCGGCGGCGGCAGGGACCTGTACTCGCAC CTCTGGCACGGCGTCGCCGACGGGGATGCGGGCGCGCTCGTGGCGGGGAGCGGCGGCGCC GGGACGAGCTTCTGCGGGAGCAACGCGGTGACGGCGCCGGCGCTGCTGCCATCGCCGGGC TCGTCCGCAGCGGGAGGCCAAGCGCTACTGTTCAAGAGGGGGAGGGACCAACTGGATAGC CGCCGAGAGGACGAACTGGATACCGACGACTGTGAGGCCGTCAATGAGACCCGGCCGCAG CGGCCGGCAGCGAAGCGCAGGACTCGTGCTGCCGAGGTCCATAACCAATCAGAGCGGAGA AGAAGGGATCGGATCAACGAAAAGATGAAAGCATTGCAAGAACTCGTACCCCATTGCAAC AAGAGCGACAAGGCGTCCATTCTAGACGAAGCAATCGAGTACTTGAAGTCTCTGCAACTG CAAGTTCAGATCATGTGGATGACTACTGGGATGACGCCCATGATGTACCCTGGTGCTCAC CAACTCATGTCGCCGATGGCCGTGGGCTTGAACTCAGCGTGCATTCCCACGGCGCAGAGC CTTAGCCAGCTGCAAAAAAGGGTAGCACCGTTTATGAACAATCATCTCCCCGATCAAATG CCTCAGGTCCAATCTCCAGCTATCGATTCCCTCGATGTGGCAAACCAGATGCAAAACAAT GGTGTCTGTGGTGAGCCAAGAAACCCTTTCCTGCATCCAGACGACACGCTAACAGCGGCA TCTCAGCTTCCGGGTATGTTGCCCTATGCATCTCAAAAGGCACAACAAAACCAGAATCAT CAGTTACTGCCTAGCATAGACATGCCAGCTTCAGGACCCTGCCCGCCATCTTTTGCTGAC GGAACGGGAAAATAAGGCCAGGCAGTTTCAAGCAAGATGATTTACTGGGGGGTTGGATAC AGGAGGTCAGAGCAAACTAGTCATAGAAGAGAAGAGATATGGTACCAAGACACTCTGTGC TGTAAGGCCAGGGGCAGATCATGCAACATTGAGCCTTGGTGGCACCACTAAGCAACCAAC ACGTATGGGCCCGAGATCATGCGGAATTGCGGATAGCAGATACTATTCTTATCCGAAGAA TAGTCTTGAGCACCACCTTTCTATTTATGGAAGGATTTGGTCCATGGGAGATGAACTTGG GGCTTTGACAGGGACAACAAAAGATGATTGTGCCGATATGCTGCAGATCTGGAGATGACA TTGTTGGAGCCAGGATCTGCACAATGACACAACTTGTGCACTTCTGCTCGTCTTTCCACC GATGTAACTCCACTCCACTGGTGAGTCCTAATGGGACTGTCCTGTTGACCCGCGGTCGAG CTATCGATATTCGAATGGACGGCTGAAACAAGGGTAGGCAGAAGAAACTTGTGCTTTTCG GACACAATTGTAGATCAGGTTTGCATATGCCTTTCAGAAATTCAGACAAGTGGTACATGA AGATCATTCTCATTCGGCCATCAGGATCGCGAGATTATCGCCTTACCCTTAACCCTGGAA AGATTGTACCGCATGTGGTGATGTCCTGTTACAAGTTAATCAGGACTGTGATGGGCATCA TCCGTTTCGTCACAGGGTAATTAGTCTCTGAAAATATCAATGATGCTGCATCTTTTGTTG TGTTATACTCCAATTGTGAGTCAGCTTCAGTCGCCGTCAGGGGAGACTGGGACTTTGCTT CGCATTTACACGTCCAGATTTGGTTGTCATGCTCGTATCATAGCGATTGATGTAGATGCT TGGCAATTTGGAGGACAGATATTCATACCATGAAAAAAAAGAGGACAGATATTCATTCTT TGCGTCTTGCTCTTGCTTCTATATATATCTAGGAAACCAGAACTAGTCAAAATTTCAAAC ATGTGAAAAGATTATTGGCTTCGCCCGGGTTCGAACCGGAGACCTTCAGTGTGTTAGACT GACGTGATAACCAACTACACCACGAAACCTTTAGTGCTTTGTCCACATATGGTAAAGTTC TCTTCTAACTACGCTCAGCTGACGAACCAAACGCAAGAAGAAAGCAAAGATAAAGTGGAA GGAAAAGGAGCAAGGAGGAGAGTAGGCGTTCTGAACACACCGACCTCTGATCCTTGCAAT CTCGCTGATGACTTTTACGCAGGGACGCAAGATTCCTGGCGAACGCAGGCCGCTGATCCT TACAATGTCGTTGATGACTTTTACGCAGAGATCCAAACCCAAAAGTATTCAGAAATACTA TCTGGTGAATGTTCGCTGGGCGGACAACCCCGGCGAACGCTCTCTCCCCCGTTGCATGGA CCTTGGCGCAGGTCGCTGGCCACGTAGGATTGCTCGAGTAGTTC
Protein Sequence (359 aa)
>BART1_0-u11397.008 359 150831_barley_pseudomolecules MDDGATPPPNHKRLREAGGDLVELLWQNGAIVAQAQAQTPHRRCSQSGAASGVTAEDATA WLIPDGGGGRDLYSHLWHGVADGDAGALVAGSGGAGTSFCGSNAVTAPALLPSPGSSAAG GQALLFKRGRDQLDSRREDELDTDDCEAVNETRPQRPAAKRRTRAAEVHNQSERRRRDRI NEKMKALQELVPHCNKSDKASILDEAIEYLKSLQLQVQIMWMTTGMTPMMYPGAHQLMSP MAVGLNSACIPTAQSLSQLQKRVAPFMNNHLPDQMPQVQSPAIDSLDVANQMQNNGVCGE PRNPFLHPDDTLTAASQLPGMLPYASQKAQQNQNHQLLPSIDMPASGPCPPSFADGTGK